Gibbs-Sampler

Python implemetation of the GIBBS sampling algorithm for finding patterns in biological sequences

Requirement

python 2.7. No library is required

Scripts

Contacts: THANH HOA NGUYEN [email protected] KRAMDI AMIRA [email protected] April 2013

GibbsFinalVersion.py : GibbsSampler class IhmFinal.py : GUI

Usage :

python IhmFinal.py

• Enter sequencing using 'browse' button
• View the uploaded sequences using the 'preview' button
• Enter number of iteration using 'iteration'
• Enter motif length using 'W'
• Define alphabet: 'nucleic', or 'proteic'
• Run the algorith 'run'

Output:

In the preview pannel, the detected motifs are highlighted between [ .. ]